Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
821,744 |
C→T |
33.3% |
intergenic (‑281/+173) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,744 | 0 | C | T | 33.3%
| 91.0
/ 50.5
| 63 | intergenic (‑281/+173) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base C (18/24); new base T (12/9); total (30/33) |
| Fisher's exact test for biased strand distribution p-value = 3.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
GATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAA > minE/821679‑821809
|
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:804117/1‑70 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:509117/1‑70 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCttt > 1:87792/1‑69 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCttt > 1:1489830/1‑69 (MQ=40)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtt < 1:198576/66‑1 (MQ=40)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa < 1:2913701/71‑1 (MQ=39)
ctacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:66514/1‑66 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAAc > 1:2593556/1‑67 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAg < 1:2751842/69‑1 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGc < 1:586455/70‑1 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCt > 1:3906341/1‑71 (MQ=39)
gTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTg < 1:3762849/71‑1 (MQ=39)
gTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTg < 1:2767886/71‑1 (MQ=39)
tctcAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGt > 1:1724755/1‑71 (MQ=39)
aaTTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa > 1:3542756/1‑60 (MQ=35)
aaTTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGc < 1:3135994/64‑1 (MQ=35)
aaTTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCa < 1:914898/71‑1 (MQ=34)
aTCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCg < 1:743751/70‑1 (MQ=39)
tCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTc < 1:1725448/52‑1 (MQ=35)
cttcacttcaTCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt < 1:2922922/50‑1 (MQ=38)
ttcaTCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAg < 1:1271260/59‑1 (MQ=35)
tcaTCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAg < 1:1585193/58‑1 (MQ=35)
tcaTCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAg < 1:2102745/58‑1 (MQ=35)
aTCCCTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGc < 1:2768597/71‑1 (MQ=14)
tCCCTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGct < 1:1387584/71‑1 (MQ=14)
ccTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:1129744/62‑1 (MQ=11)
cTGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTg < 1:2463129/71‑1 (MQ=17)
cTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTg < 1:3720935/71‑1 (MQ=255)
tGAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAg > 1:583189/1‑63 (MQ=14)
tGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTg > 1:3138346/1‑70 (MQ=255)
gAAATGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:3123666/1‑71 (MQ=17)
aaTGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgat > 1:3682894/1‑70 (MQ=17)
aaTGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgat > 1:240717/1‑70 (MQ=17)
aaTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGctc > 1:23727/1‑65 (MQ=255)
aaTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatg < 1:3007666/71‑1 (MQ=255)
aTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatga < 1:1700420/71‑1 (MQ=255)
aTGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgatga < 1:1275452/71‑1 (MQ=255)
tGTTTGCAATGAAGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatgag < 1:3071787/71‑2 (MQ=18)
gCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCtt < 1:2229396/70‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct < 1:1323280/56‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct < 1:3878576/56‑1 (MQ=255)
cAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTc < 1:57373/70‑1 (MQ=255)
tgaaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatg < 1:3052251/58‑1 (MQ=21)
tAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGc > 1:2248697/1‑71 (MQ=255)
gaaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTc > 1:1806389/2‑66 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGgatga > 1:1164136/1‑59 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:2556154/1‑56 (MQ=21)
aaGAGTGCATTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGga > 1:2005732/1‑56 (MQ=21)
aaGAGTGCATTCCGGTATTTCAACAGCTGTTACAGTCATTTCATGAGAGCTCTGgatga > 1:2361553/1‑59 (MQ=21)
aaGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGtt > 1:3570292/1‑40 (MQ=40)
agTGCATTCCGGTTTTTCAACAGCTGTTACAGTCAttt < 1:540275/38‑1 (MQ=11)
gTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCtt < 1:3690362/60‑1 (MQ=255)
cATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCGAGCTCggg > 1:161017/1‑67 (MQ=255)
aTTCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCt > 1:661338/1‑55 (MQ=25)
aTTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCt < 1:2248109/55‑1 (MQ=255)
ttCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:410323/35‑1 (MQ=17)
ttCCGGTTTTTCAACAGCTGTTACAGTCATTTCAt < 1:3387662/35‑1 (MQ=17)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:1973720/1‑71 (MQ=38)
tCCGGTTTTTCAACAGCTGTTACAGTCATTTCATGAGTGCTCTGGATGAGGCTTCCAGCTCGGGTTGCCaa > 1:2617331/1‑71 (MQ=38)
tCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCa > 1:2305213/1‑70 (MQ=255)
cGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct > 1:2953427/1‑39 (MQ=255)
cGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGct > 1:2129108/1‑39 (MQ=255)
ggCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCt > 1:2577897/1‑57 (MQ=255)
cTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGgat > 1:3242477/1‑42 (MQ=255)
|
GATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTCGTTTCATGAGTGCTCTGGATGATGCTTCCAGCTCGGGTTGCCAA > minE/821679‑821809
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
